Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TFAP2A

Cell type

Cell type Class
Neural
Cell type
SK-N-MC
Primary Tissue
Brain
Site of Extraction
Brain
Tissue Diagnosis
neuroepithelioma

Attributes by original data submitter

Sample

source_name
Ewing sarcoma cells
cell type
Ewing sarcoma cells
cell line
SKNMC
genotype
wildtype
chip antibody
AP2a (Santa Cruz, sc-12726X)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with the specified antibodies using standard protocol. Precipitated DNA samples were used to prepare sequencing libraries with Ultralow V2 DNA-Seq Library Preparation Kit (NuGEN, 0344NB-A01), and DNA samples were sequenced with the Nextseq 500 Illumina genome analyzer.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
28984786
Reads aligned (%)
96.8
Duplicates removed (%)
11.5
Number of peaks
13797 (qval < 1E-05)

hg19

Number of total reads
28984786
Reads aligned (%)
96.1
Duplicates removed (%)
12.6
Number of peaks
14040 (qval < 1E-05)

Base call quality data from DBCLS SRA